Motif HL_83914.2 Version HL_83914.2 of this group appears in releases 0.2 to 0.2
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 1-4 | 1-5 | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_3PYO_041 | 3PYO | 0.3956 | 1 | A | 23S ribosomal RNA | C | 163|||B | A | 1631 | A | 1632 | G | 1633 | G | 1635 | cWW | ||
| 2 | HL_2ZJR_041 | 2ZJR | 0.3693 | 1 | X | LSU rRNA | U | 1647 | C | 1648 | A | 1649 | A | 1650 | G | 1652 | cWW | ||
| 3 | HL_2QBG_035 | 2QBG | 0.3047 | 2 | B | 23S rRNA | G | 1324 | U | 1326 | A | 1327 | A | 1328 | C | 1330 | cWW | ||
| 4 | HL_2ZJR_030 | 2ZJR | 0.2260 | 0 | X | LSU rRNA | C | 1185 | G | 1186 | A | 1187 | A | 1188 | G | 1189 | ntWH | cWW | |
| 5 | HL_3O58_032 | 3O58 | 0.0000 | 2 | 1 | 25S ribosomal RNA | A | 1506 | C | 1508 | A | 1509 | G | 1510 | U | 1512 | cWW | ||
| 6 | HL_1S72_035 | 1S72 | 0.2826 | 2 | Pseudoknot geometry with 3' bulge (H) | 0 | LSU rRNA | G | 1430 | U | 1432 | G | 1433 | A | 1434 | C | 1436 | cWW | |
| 7 | HL_2ZJR_033 | 2ZJR | 0.3354 | 2 | Pseudoknot geometry with 3' bulge (H) | X | LSU rRNA | G | 1337 | U | 1339 | C | 1340 | G | 1341 | C | 1343 | cWW | |
| 8 | HL_2QBG_039 | 2QBG | 0.6759 | 2 | B | 23S rRNA | G | 1492 | A | 1494 | A | 1495 | A | 1496 | C | 1498 | cWW | ||
| 9 | HL_2ZJR_037 | 2ZJR | 0.7313 | 2 | Pseudoknot geometry with 3' bulge (H) | X | LSU rRNA | G | 1508 | A | 1510 | A | 1511 | A | 1512 | C | 1514 | cWW | |
| 10 | HL_3PYO_033 | 3PYO | 0.9434 | 2 | A | 23S ribosomal RNA | G | 1324 | U | 1326 | C | 1327 | G | 1328 | C | 1330 | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| GGUCGUC | 2 |
| CAAGAG | 1 |
| UCAAUG | 1 |
| GUUAAUC | 1 |
| CGAAG | 1 |
| AGCAGUU | 1 |
| GCUGAUC | 1 |
| GCAAAUC | 1 |
| GAAAAUC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GUCGU | 2 |
| AAGA | 1 |
| CAAU | 1 |
| UUAAU | 1 |
| GAA | 1 |
| GCAGU | 1 |
| CUGAU | 1 |
| CAAAU | 1 |
| AAAAU | 1 |
Release history
| Release | 0.2 |
|---|---|
| Date | 2011-12-08 |
| Status | Updated, 2 parents |
Parent motifs
| Parent motif | Common motif instances | Only in HL_83914.2 | Only in the parent motif |
|---|---|---|---|
| HL_83914.1 Compare | HL_1S72_035, HL_2QBG_035, HL_2ZJR_030, HL_2ZJR_033, HL_3PYO_041, HL_2QBG_039, HL_2ZJR_037, HL_3O58_032, HL_3PYO_033 | HL_2ZJR_041 | HL_2R93_001, HL_1S72_004 |
| HL_85157.1 Compare | HL_2ZJR_041 | HL_1S72_035, HL_2QBG_035, HL_2ZJR_030, HL_2ZJR_033, HL_3PYO_041, HL_2QBG_039, HL_2ZJR_037, HL_3O58_032, HL_3PYO_033 |
Children motifs
| Child motif | Common motif instances | Only in HL_83914.2 | Only in the child motif |
|---|---|---|---|
| HL_80459.1 Compare | HL_1S72_035, HL_2QBG_035, HL_2ZJR_030, HL_2ZJR_033, HL_2ZJR_041, HL_2QBG_039 | HL_3PYO_041, HL_3PYO_033, HL_2ZJR_037, HL_3O58_032 | HL_3U5H_032, HL_3V2F_035, HL_3V2F_031, HL_4A1B_031, HL_3V2F_039 |
| HL_28436.1 Compare | HL_2ZJR_037 | HL_1S72_035, HL_2QBG_035, HL_2ZJR_030, HL_2ZJR_033, HL_3PYO_041, HL_2ZJR_041, HL_2QBG_039, HL_3O58_032, HL_3PYO_033 | HL_2NR0_003, HL_3OWZ_002, HL_2ZJR_063, HL_1U6B_002, HL_1S72_067, HL_2QBG_067, HL_4A1B_066, HL_3U5H_067 |
- Annotations
-
- (7)
- Pseudoknot geometry with 3' bulge (H) (3)
- Basepair signature
- Heat map statistics
- Min 0.14 | Avg 0.44 | Max 0.94
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